Table 1.

Characteristics of software used to infer recent declines in this study. SFS = site-frequency spectrum, LD = linkage disequilibrium, WGS = whole-genome sequencing, RAD = restriction-associated DNA or similar reduced-representation data, VCF = variant call format file.

Software	Inference method	Data type	Temporal scheme	Input format	Additional inputs
momi2	SFS	WGS or RAD	Contemporary or temporal	SFS/VCF*	Mutation rate, generation time
Stairway Plot	SFS	WGS	Contemporary only	SFS/VCF*	Mutation rate, generation time
NeEstimator	LD	RAD	Temporal	Genepop	Chromosome locations (optional)
GONE	LD	WGS	Contemporary only	PLINK	Recombination map (optional)

^*Note that the SFS-based methods accept an SFS for their input but that this SFS can be calculated from a standard VCF file.